mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 27 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,604,344 | 0 | C | T | 43.0% | 78.6 / 60.8 | 86 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,111,747 | 0 | G | T | 33.3% | 93.1 / 31.9 | 45 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,568,504 | 0 | T | G | 31.5% | 208.7 / 21.7 | 112 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,111,752 | 0 | T | C | 31.2% | 79.1 / 12.7 | 48 | K155E (AAA→GAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 2,326,450 | 0 | T | G | 29.6% | 126.9 / 41.4 | 71 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 29,496 | 0 | T | A | 29.0% | 136.8 / 35.3 | 69 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 501,575 | 0 | A | C | 28.9% | 73.7 / 13.4 | 38 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 501,564 | 0 | A | C | 28.2% | 77.2 / 13.4 | 39 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 2,001,918 | 0 | A | C | 27.7% | 129.5 / 24.8 | 65 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 3,206,435 | 0 | C | T | 27.5% | 85.6 / 23.5 | 51 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,628,625 | 0 | A | C | 26.9% | 107.0 / 19.7 | 52 | V105G (GTC→GGC) | pdeF | cyclic di‑GMP phosphodiesterase PdeF |
| * | NC_000913 | 3,556,207 | 0 | T | C | 26.1% | 84.5 / 13.0 | 46 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 1,825,061 | 0 | G | A | 25.6% | 71.3 / 11.2 | 39 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 2,256,932 | 0 | G | T | 25.6% | 223.2 / 59.2 | 86 | A135D (GCC→GAC) | psuT | putative pseudouridine transporter |
| * | NC_000913 | 646,747 | 0 | T | G | 25.5% | 106.8 / 21.3 | 51 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 2,667,126 | 0 | A | C | 24.6% | 133.4 / 14.2 | 65 | Y241D (TAT→GAT) | hcaT | putative 3‑phenylpropionate transporter |
| * | NC_000913 | 650,809 | 0 | T | G | 24.1% | 133.3 / 11.1 | 58 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 888,014 | 0 | T | G | 24.0% | 101.4 / 11.1 | 50 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 2,140,926 | 0 | A | C | 23.9% | 167.2 / 12.0 | 71 | G229G (GGT→GGG) | asmA | putative assembly protein AsmA |
| * | NC_000913 | 4,287,719 | 0 | T | A | 23.3% | 196.6 / 33.8 | 86 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| Marginal new junction evidence (lowest skew 10 of 35 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 374963 | NA (NA) | 24 (0.380) | 9/190 | 4.0 | NA | noncoding (33/34 nt) | other | REP31a |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 375160 | NA (NA) | 32 (0.350) +T |
14/274 | 4.3 | NA | noncoding (28/34 nt) | other | REP31e |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | = 375059 | NA (NA) | 17 (0.190) +T |
11/274 | 5.0 | NA | noncoding (28/34 nt) | other | REP31c |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | = 375246 | NA (NA) | 12 (0.150) +GAACGCCTTATCCGGT |
8/244 | 5.4 | NA | noncoding (13/34 nt) | other | REP31g |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 11 (0.160) | 6/202 | 5.4 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377430 = | NA (NA) | intergenic (+119/+105) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 2518036 = | 85 (0.920) | 7 (0.110) +41 bp |
5/194 | 5.6 | 12.1% | intergenic (‑204/+5) | pdeA/alaX | putative c‑di‑GMP phosphodiesterase PdeA/tRNA‑Ala |
| ? | NC_000913 | 2521180 = | 60 (0.650) | noncoding (8/76 nt) | valY | tRNA‑Val | |||||
| * | ? | NC_000913 | 3231254 = | NA (NA) | 5 (0.070) | 5/224 | 6.2 | NA | noncoding (2/34 nt) | other | REP231a |
| ? | NC_000913 | 3234722 = | NA (NA) | noncoding (3/34 nt) | other | REP233b | |||||
| * | ? | NC_000913 | 2518036 = | 85 (0.920) | 5 (0.080) +41 bp |
3/194 | 6.7 | 9.3% | intergenic (‑204/+5) | pdeA/alaX | putative c‑di‑GMP phosphodiesterase PdeA/tRNA‑Ala |
| ? | NC_000913 | 2521058 = | 54 (0.580) | noncoding (8/76 nt) | valX | tRNA‑Val | |||||
| * | ? | NC_000913 | 2518036 = | 85 (0.920) | 5 (0.080) +41 bp |
3/194 | 6.7 | 7.9% | intergenic (‑204/+5) | pdeA/alaX | putative c‑di‑GMP phosphodiesterase PdeA/tRNA‑Ala |
| ? | NC_000913 | 2520938 = | 81 (0.880) | noncoding (8/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781075 = | 122 (1.320) | 5 (0.080) +41 bp |
3/194 | 6.7 | 6.4% | noncoding (8/76 nt) | valZ | tRNA‑Val |
| ? | NC_000913 | 2518036 = | 85 (0.920) | intergenic (‑204/+5) | pdeA/alaX | putative c‑di‑GMP phosphodiesterase PdeA/tRNA‑Ala | |||||